Home

Download

Statistics

Landscape

Help

Contact

lncRNA: ENSG00000259953

Summary for RP11-4O1.2

Gene summary

Gene information	Ensembl ID	ENSG00000259953
	Gene symbol	RP11-4O1.2
	Gene name
	HGNC
	Entrez ID
	Gene type	sense_overlapping
	Synonyms
	UniProtAcc

Top

Structure and expression level for RP11-4O1.2

AS events and RNA A-to-I editing events of lncRNA in TCGA based on Genvode V22 structure.

Differentially expressed gene analysis between cancer and normal samples.

Ensembl ID	Base mean	log2FC(AD/control)	lfcSE	Stat	P-value	Adjc.p-value	DEG direction	Cancer type
ENSG00000259953	2.087792e+02	-1.516843e+00	3.460011e-01	-4.383926e+00	1.170000e-05	7.340000e-05	DOWN	GBM
ENSG00000259953	1.043408e+03	1.653327e+00	2.129137e-01	7.765243e+00	8.150000e-15	7.990000e-14	UP	KICH

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000259953	3.636084e-01	4.609582e-04	KICH	6.842215e-04
ENSG00000259953	-3.172143e-01	1.114519e-15	KIRC	4.990383e-15

Top

lncRNA-Protein interaction for RP11-4O1.2

lncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000163939	PBRM1	84.33	92.6115	Q86U86	Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000124177	CHD6	92.82	96.9688	Q8TD26	Epi	NA
ENSG00000259953	ENST00000563434	RP11-4O1.2	ENSG00000118058	KMT2A	91.17	96.472	Q03164	TF,Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000163932	PRKCD	89.98	93.0948	Q05655	Epi	NA
ENSG00000259953	ENST00000563434	RP11-4O1.2	ENSG00000196199	MPHOSPH8	87.53	91.016	Q99549	Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000164080	RAD54L2	84.74	95.8116	Q9Y4B4	Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000187555	USP7	80.82	92.1169	Q93009	Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000131149	GSE1	71.8	94.4174	Q14687	Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000182568	SATB1	54.34	93.0399	Q01826	TF,Epi	NA

lncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000118058	KMT2A	99.92	97.5912	Q03164	TF,Epi	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000187605	TET3	75.77	96.6816	O43151	TF,Epi	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000147124	ZNF41	72.78	93.8739	P51814	TF	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000182568	SATB1	69.66	92.6273	Q01826	TF,Epi	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000084093	REST	64.43	94.0464	Q13127	TF,Epi	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000167232	ZNF91	61.72	90.7766	Q05481	TF	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000140836	ZFHX3	42.46	95.8617	Q15911	TF	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000169057	MECP2	26.17	92.2824	P51608	TF,Epi	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000278129	ZNF8	4.47	90.9791	P17098	TF	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000178177	LCORL	3.09	93.7885	Q8N3X6	TF	NA
ENSG00000259953	ENST00000563434	RP11-4O1.2	ENSG00000118058	KMT2A	91.17	96.4762	Q03164	TF,Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000182568	SATB1	54.34	93.0597	Q01826	TF,Epi	NA
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000178177	LCORL	3.92	92.8973	Q8N3X6	TF	NA

lncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000259953	ENST00000568421	RP11-4O1.2	ENSG00000110367	DDX6	17.51	91.1063	P26196	RBP	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000003756	RBM5	86.48	95.2938	P52756	RBP	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000004534	RBM6	86.31	94.3686	P78332	RBP	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000135870	RC3H1	55.47	95.762	Q5TC82	RBP	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000184863	RBM33	22.01	90.9616	Q96EV2	RBP	NA
ENSG00000259953	ENST00000563249	RP11-4O1.2	ENSG00000172795	DCP2	5.47	91.1465	Q8IU60	RBP	NA

Top

lncRNA-DNA interaction for RP11-4O1.2

lncRNA targets the enhancer region and positively regulates the gene expression.

Only predicted by TDF

CMTM4,TRMO,ALG2,MTMR10,SLC12A2,TBC1D24,CDK13,EXPH5,SPATA13,LCORL,NICN1,ICA1,ZDHHC23,GNAQ,PLEKHH1,INO80D,ATRX,HSDL1,NHLRC2,PBRM1,TET3,PDPK1,PRR14L,PPM1A,RNPC3,ARHGAP18,MSANTD2,CCDC14,STRBP,CLASP2,KIAA2026,DCAF16,SETD2,RICTOR,INIP,PDP2,SAMD12,CCNT2,RC3H1,DPP8,MAGI1,ZNF91,CHD6,USP7,PPIP5K1,IGIP,BCLAF3,PTPN3,PUS7L,NF1,ZCCHC14,DUSP8,LNPEP,UBN2,DDX6,SCAPER,FBXW2,DDX17,ATP9A,MECP2,ZNF41,FBXL20,TRAPPC6B,RGL3,RALGAPA2,CELF1,TRIM52,USF3,PWWP2A,CCDC93,MARVELD2,VPS13C,ZNF8,SUSD1,NR2C2,PPP4R2,GK5,NOL4L,RBM6,FAM13B,GRIPAP1,ZFHX3,ARHGAP12,RBM5,BTBD9,NKTR,CRAMP1,VCPIP1,DMAC2L,CDC14B,ARHGEF7,SACM1L,MROH1,LRP11,KMT2A,VPS13A,SVIP,XPA,INSR,STXBP5,ECPAS,ASXL1,TSC1,PPP1R26,DMXL2,TRAPPC2,RBM33,AVL9,NOL8,ZDHHC21,PDCL

Exist in public source

lncRNA targets the promoter region and positively regulates the gene expression.

Only predicted by TDF

GK5,MOB1B,ZYG11B,CDK13,DDX17,CCDC66,DPP8,RBM5,MECP2,WDR48,NICN1,TRMO,FAM73B,RGL3,REST,DDX6,SENP5,RBM6,INSR,FBXL20,ZFHX3,PDP2,PDCL,GRIPAP1,CELF1,PDP1,LCORL

Exist in public source

lncRNA targets the promoter region and negatively regulates the gene expression.

Top

lncRNA-RNA interaction for RP11-4O1.2

lncRNA targets the 3'UTR region and negatively regulates the mRNA.

Only predicted by lncTar

AKR7A2,TRIP6,VAMP5,RHOC,SDF4,RNF181,UROD

Exist in public source

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

lncRNA and exonskipping events positive correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	ORF mutation
ENSG00000259953	ENST00000563249	exon_skip_44998	chr10:110132304-110132400	-10.05	-0.1340	ADD3	ENST00000356080	In-frame

-lncRNA and exonskipping events are negatively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

LOF

lncRNA targets by miRNA.

LncRNA Ensembl ID

miRNA ID

LncRNA ENST ID

Binding site in lncRNA

Score

Energy

Align Len

Public source

Top

Variants for RP11-4O1.2

RNA A-to-I editing events in lncRNA.

LncRNAediting ID	LncRNA Ensembl ID	Chromosome	Editing Position	Strand	Gene Type	Gene Name	Transcript ID	Transcript Type	Transcript Name
LncEditing_219896	ENSG00000259953.1	chr9	112035925	-	sense_overlapping	RP11-4O1.2	ENST00000568421.1	sense_overlapping	RP11-4O1.2-001
LncEditing_219905	ENSG00000259953.1	chr9	112035971	-	sense_overlapping	RP11-4O1.2	ENST00000568421.1	sense_overlapping	RP11-4O1.2-001
LncEditing_219914	ENSG00000259953.1	chr9	112035991	-	sense_overlapping	RP11-4O1.2	ENST00000568421.1	sense_overlapping	RP11-4O1.2-001
LncEditing_219917	ENSG00000259953.1	chr9	112036023	-	sense_overlapping	RP11-4O1.2	ENST00000568421.1	sense_overlapping	RP11-4O1.2-001
LncEditing_219926	ENSG00000259953.1	chr9	112036034	-	sense_overlapping	RP11-4O1.2	ENST00000568421.1	sense_overlapping	RP11-4O1.2-001
LncEditing_219938	ENSG00000259953.1	chr9	112036067	-	sense_overlapping	RP11-4O1.2	ENST00000568421.1	sense_overlapping	RP11-4O1.2-001
LncEditing_219975	ENSG00000259953.1	chr9	112036464	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_219991	ENSG00000259953.1	chr9	112036510	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_219993	ENSG00000259953.1	chr9	112036524	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_219995	ENSG00000259953.1	chr9	112036534	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_220035	ENSG00000259953.1	chr9	112036609	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_220039	ENSG00000259953.1	chr9	112036614	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_220049	ENSG00000259953.1	chr9	112036678	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_220055	ENSG00000259953.1	chr9	112036700	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002
LncEditing_220073	ENSG00000259953.1	chr9	112036800	-	sense_overlapping	RP11-4O1.2	ENST00000563434.1	sense_overlapping	RP11-4O1.2-002

Edited-associated DElncRNAs in cancer.

LncRNA Ensembl ID	LncRNA Index	Cancer Type	Chr_Postion_Strand	AVE1	AVE2	log2FC	W-value	P-value	Adjc.p-value	Change
ENSG00000259953	LncEditing_219896	KICH	chr9_112035925_-	6.860115e+00	3.421394e+00	9.963646e-01	3.594254e+00	3.253226e-04	8.191859e-04	UP
ENSG00000259953	LncEditing_219905	KICH	chr9_112035971_-	6.754977e+00	3.315465e+00	9.739569e-01	4.054545e+00	5.023188e-05	1.794609e-04	UP
ENSG00000259953	LncEditing_219914	KICH	chr9_112035991_-	6.330169e+00	3.033013e+00	9.420700e-01	4.644730e+00	3.405217e-06	2.189816e-05	UP
ENSG00000259953	LncEditing_219917	KICH	chr9_112036023_-	6.514854e+00	3.240040e+00	9.923379e-01	4.193163e+00	2.750912e-05	1.105655e-04	UP
ENSG00000259953	LncEditing_219926	KICH	chr9_112036034_-	6.650707e+00	3.002795e+00	8.716862e-01	5.075813e+00	3.858424e-07	4.148967e-06	UP
ENSG00000259953	LncEditing_219938	KICH	chr9_112036067_-	5.474890e+00	3.120057e+00	1.232654e+00	3.581772e+00	3.412715e-04	8.491161e-04	UP
ENSG00000259953	LncEditing_219991	KICH	chr9_112036510_-	6.183723e+00	3.080833e+00	9.948711e-01	4.477215e+00	7.562307e-06	4.159269e-05	UP
ENSG00000259953	LncEditing_219993	KICH	chr9_112036524_-	6.447302e+00	3.371406e+00	1.069124e+00	3.600000e+00	3.182172e-04	8.110657e-04	UP
ENSG00000259953	LncEditing_219995	KICH	chr9_112036534_-	6.263597e+00	3.054751e+00	9.653101e-01	4.781787e+00	1.737433e-06	1.230927e-05	UP
ENSG00000259953	LncEditing_220035	KICH	chr9_112036609_-	6.334508e+00	3.444460e+00	1.137715e+00	3.209890e+00	1.327860e-03	2.605847e-03	UP
ENSG00000259953	LncEditing_220039	KICH	chr9_112036614_-	6.241029e+00	3.245519e+00	1.060069e+00	4.018014e+00	5.869084e-05	2.010883e-04	UP
ENSG00000259953	LncEditing_220049	KICH	chr9_112036678_-	5.719021e+00	3.462799e+00	1.381540e+00	2.711797e+00	6.691962e-03	9.679031e-03	UP
ENSG00000259953	LncEditing_219914	LAML	chr9_112035991_-	8.947640e+00	5.718613e+00	1.548367e+00	6.337026e+00	2.342429e-10	1.268816e-09	UP
ENSG00000259953	LncEditing_219938	LAML	chr9_112036067_-	8.614913e+00	6.161887e+00	2.068407e+00	3.624375e+00	2.896610e-04	4.154835e-04	UP
ENSG00000259953	LncEditing_219975	LAML	chr9_112036464_-	9.670050e+00	5.859737e+00	1.383724e+00	6.034618e+00	1.593390e-09	6.822214e-09	UP
ENSG00000259953	LncEditing_219993	LAML	chr9_112036524_-	9.611621e+00	6.185673e+00	1.572700e+00	4.235962e+00	2.275757e-05	4.009357e-05	UP
ENSG00000259953	LncEditing_219995	LAML	chr9_112036534_-	9.097622e+00	5.895817e+00	1.597960e+00	5.426049e+00	5.761508e-08	1.727054e-07	UP
ENSG00000259953	LncEditing_220039	LAML	chr9_112036614_-	9.742013e+00	6.246352e+00	1.559561e+00	4.286356e+00	1.816282e-05	3.265078e-05	UP
ENSG00000259953	LncEditing_220055	LAML	chr9_112036700_-	9.777598e+00	6.268130e+00	1.558980e+00	4.062253e+00	4.860144e-05	8.111187e-05	UP
ENSG00000259953	LncEditing_220073	LAML	chr9_112036800_-	9.439949e+00	6.258586e+00	1.686505e+00	3.814758e+00	1.363165e-04	2.093917e-04	UP
ENSG00000259953	LncEditing_219995	STAD	chr9_112036534_-	2.090933e+00	1.121559e+00	1.112791e+00	7.279425e+00	3.352454e-13	6.907503e-13	UP
ENSG00000259953	LncEditing_219993	ESCA	chr9_112036524_-	1.844284e+00	9.429304e-01	1.033231e+00	3.435140e+00	5.922488e-04	6.888754e-04	UP
ENSG00000259953	LncEditing_219995	ESCA	chr9_112036534_-	1.818909e+00	9.395375e-01	1.049262e+00	3.486198e+00	4.899389e-04	5.755057e-04	UP

Correlation between RNA A-to-I editing events's frequecy and lncRNA expression.

LncRNA Ensembl ID	LncRNA Index	Correlation	P-value	Adjc.p-value
ENSG00000259953	LncEditing_219938	-5.870998e-01	1.022245e-03	7.531232e-03
ENSG00000259953	LncEditing_219993	-6.012679e-01	6.468983e-03	1.602777e-02

Cis-expression quantitative trait loci(cis-eQTL) of lncRNA.

LncRNA Ensembl ID

LncRNA Name

SNP info

Number of Positive corelated Cancer

Positive corelated Cancer

Number of Negative corelated Cancer

Negative corelated Cancer

Top

lncRNAs regulate the target genes through functioning as enhancers

lncRNA regulates differentially expressed genes by function as enhancer.

LncRNA Ensembl ID	PC Gene ID	PC Gene Name	Positive correlated cancers	Cancer with PC gene up-regulation	Cancer with PC gene down-regulation
ENSG00000259953	ENSG00000003147	ICA1	BLCA,ESCA,GBM,KIRC,LGG,READ,STAD		GBM
ENSG00000259953	ENSG00000031003	FAM13B	BLCA,COAD,GBM,LGG,PAAD		GBM
ENSG00000259953	ENSG00000054793	ATP9A	BLCA,COAD,ESCA,GBM,KICH,KIRC,PAAD		GBM
ENSG00000259953	ENSG00000085224	ATRX	BLCA,COAD,ESCA,GBM,KIRC		GBM
ENSG00000259953	ENSG00000100614	PPM1A	BLCA,COAD,GBM,KICH,KIRC	KICH	GBM
ENSG00000259953	ENSG00000104093	DMXL2	BLCA,COAD,ESCA,GBM,PAAD		GBM
ENSG00000259953	ENSG00000108306	FBXL20	BLCA,COAD,GBM,KIRC,LGG		GBM
ENSG00000259953	ENSG00000110723	EXPH5	BLCA,COAD,KICH,KIRC,READ	KICH
ENSG00000259953	ENSG00000120256	LRP11	BLCA,COAD,GBM,KIRC,READ		GBM
ENSG00000259953	ENSG00000140386	SCAPER	BLCA,COAD,GBM,KIRC,PAAD		GBM
ENSG00000259953	ENSG00000151276	MAGI1	BLCA,COAD,ESCA,GBM,KICH,KIRC,PAAD	KICH	GBM
ENSG00000259953	ENSG00000163257	DCAF16	BLCA,COAD,KICH,KIRC,KIRP,READ	KICH
ENSG00000259953	ENSG00000163539	CLASP2	BLCA,COAD,GBM,KIRC,PAAD		GBM
ENSG00000259953	ENSG00000164327	RICTOR	BLCA,COAD,GBM,KICH,KIRC	KICH	GBM
ENSG00000259953	ENSG00000164506	STXBP5	BLCA,COAD,GBM,KIRC,PAAD		GBM
ENSG00000259953	ENSG00000165699	TSC1	BLCA,COAD,ESCA,GBM,KICH,KIRP,LGG,PAAD,READ		GBM
ENSG00000259953	ENSG00000171105	INSR	BLCA,ESCA,KICH,PAAD,READ	KICH
ENSG00000259953	ENSG00000171456	ASXL1	BLCA,COAD,ESCA,KICH,KIRP	KICH
ENSG00000259953	ENSG00000172840	PDP2	BLCA,COAD,KICH,KIRC,READ	KICH
ENSG00000259953	ENSG00000175073	VCPIP1	BLCA,COAD,GBM,READ,STAD		GBM
ENSG00000259953	ENSG00000175893	ZDHHC21	BLCA,COAD,GBM,KIRC,KIRP,PAAD		GBM
ENSG00000259953	ENSG00000176542	USF3	BLCA,COAD,GBM,KIRC,READ		GBM
ENSG00000259953	ENSG00000179832	MROH1	BLCA,GBM,KIRC,KIRP,STAD		GBM
ENSG00000259953	ENSG00000182700	IGIP	BLCA,COAD,GBM,KIRP,READ		GBM
ENSG00000259953	ENSG00000183530	PRR14L	BLCA,COAD,GBM,KICH,KIRC,PAAD		GBM
ENSG00000259953	ENSG00000183723	CMTM4	BLCA,COAD,ESCA,GBM,KICH,KIRC	KICH	GBM
ENSG00000259953	ENSG00000183826	BTBD9	BLCA,ESCA,GBM,KIRC,LGG,PAAD		GBM
ENSG00000259953	ENSG00000184307	ZDHHC23	BLCA,COAD,ESCA,KICH,KIRC	KICH
ENSG00000259953	ENSG00000188559	RALGAPA2	BLCA,ESCA,GBM,KICH,KIRC	KICH
ENSG00000259953	ENSG00000196712	NF1	BLCA,COAD,ESCA,GBM,KIRC		GBM
ENSG00000259953	ENSG00000197969	VPS13A	BLCA,COAD,ESCA,GBM,PAAD,READ,STAD		GBM
ENSG00000259953	ENSG00000102606	ARHGEF7	COAD,ESCA,GBM,PAAD,READ		GBM
ENSG00000259953	ENSG00000136813	ECPAS	COAD,GBM,PAAD,READ,STAD		GBM
ENSG00000259953	ENSG00000140948	ZCCHC14	COAD,GBM,KICH,KIRP,READ	KICH
ENSG00000259953	ENSG00000140992	PDPK1	COAD,GBM,KICH,PAAD,READ		GBM
ENSG00000259953	ENSG00000156052	GNAQ	COAD,ESCA,GBM,KICH,KIRC,KIRP,PAAD	KICH	GBM
ENSG00000259953	ENSG00000165209	STRBP	COAD,KICH,KIRC,LGG,PAAD,READ,STAD	KICH
ENSG00000259953	ENSG00000182400	TRAPPC6B	COAD,GBM,KICH,KIRC,LGG	KICH	GBM
ENSG00000259953	ENSG00000187555	USP7	COAD,GBM,KICH,KIRC,PAAD,READ	KICH	GBM
ENSG00000259953	ENSG00000068400	GRIPAP1	ESCA,GBM,LGG,PAAD,READ		GBM
ENSG00000259953	ENSG00000168781	PPIP5K1	ESCA,GBM,KICH,KIRC,KIRP,PAAD	KICH	GBM
ENSG00000259953	ENSG00000184545	DUSP8	ESCA,GBM,KICH,KIRC,LGG	KICH	GBM
ENSG00000259953	ENSG00000196422	PPP1R26	ESCA,GBM,KICH,KIRP,PAAD,READ		GBM
ENSG00000259953	ENSG00000198168	SVIP	ESCA,KICH,KIRC,KIRP,PAAD	KICH
ENSG00000259953	ENSG00000205517	RGL3	ESCA,KICH,KIRC,KIRP,PAAD	KICH
ENSG00000259953	ENSG00000162065	TBC1D24	GBM,KICH,KIRC,LGG,PAAD	KICH	GBM

Top

lncRNAs regulate the target genes through recruiting transcript factors

LncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).

lncRNA ID	TF ID	TF Name	PCgene ID	PCgene Name	Number of Cancer	Canaer Types
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000175066	GK5	5	BLCA,COAD,ESCA,KIRC,KIRP
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000173542	MOB1B	5	BLCA,COAD,GBM,KIRC,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000100201	DDX17	5	BLCA,COAD,KIRP,LUAD,PAAD
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000180376	CCDC66	6	BLCA,COAD,ESCA,KIRP,PAAD,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000003756	RBM5	6	COAD,ESCA,KIRP,LUAD,PAAD,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000169057	MECP2	5	COAD,GBM,KIRC,KIRP,LUAD
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000114742	WDR48	5	COAD,ESCA,KIRC,KIRP,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000084093	REST	5	BLCA,COAD,KIRC,LUAD,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000110367	DDX6	6	BLCA,COAD,GBM,KIRC,LUAD,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000004534	RBM6	5	COAD,ESCA,LUAD,PAAD,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000149187	CELF1	5	COAD,GBM,LUAD,PAAD,READ
ENSG00000259953	ENSG00000167232	ZNF91	ENSG00000178177	LCORL	5	COAD,ESCA,KIRC,LUAD,READ

LncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

Top

lncRNAs regulate the alternative splicing event through interacting with splicing factor

LncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

LncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

Top

lncRNAs regulate mRNA through targeting the 3'-UTR region

lncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.

LncRNA Ensembl ID	LncRNA ENST ID	PC Gene Name	PC Gene ID	PC ENST ID	dG	nDG	Cancer with PC gene up-regulation	Cancer with PC gene Down-regulation
ENSG00000259953	ENST00000563434	AKR7A2	ENSG00000053371	ENST00000330072	-0.1042	1729	-	KICH
ENSG00000259953	ENST00000563434	AKR7A2	ENSG00000053371	ENST00000489286	-0.1522	2416	-	KICH
ENSG00000259953	ENST00000563434	AKR7A2	ENSG00000053371	ENST00000481966	-0.1077	1659	-	KICH
ENSG00000259953	ENST00000563434	RHOC	ENSG00000155366	ENST00000369638	-0.1009	1663	GBM	KICH
ENSG00000259953	ENST00000563434	RHOC	ENSG00000155366	ENST00000369637	-0.1235	2239	GBM	KICH
ENSG00000259953	ENST00000563434	RHOC	ENSG00000155366	ENST00000369636	-0.1768	902	GBM	KICH
ENSG00000259953	ENST00000563434	RHOC	ENSG00000155366	ENST00000369632	-0.8833	1827	GBM	KICH
ENSG00000259953	ENST00000563434	RHOC	ENSG00000155366	ENST00000528831	-0.1208	2843	GBM	KICH
ENSG00000259953	ENST00000563434	TRIP6	ENSG00000087077	ENST00000200457	-0.1057	243	GBM	KICH
ENSG00000259953	ENST00000568421	AKR7A2	ENSG00000053371	ENST00000330072	-0.1042	997	-	KICH
ENSG00000259953	ENST00000568421	AKR7A2	ENSG00000053371	ENST00000489286	-0.1522	1684	-	KICH
ENSG00000259953	ENST00000568421	AKR7A2	ENSG00000053371	ENST00000481966	-0.1077	927	-	KICH
ENSG00000259953	ENST00000568421	RHOC	ENSG00000155366	ENST00000369638	-0.1300	146	GBM	KICH
ENSG00000259953	ENST00000568421	RHOC	ENSG00000155366	ENST00000369637	-0.1477	184	GBM	KICH
ENSG00000259953	ENST00000568421	RHOC	ENSG00000155366	ENST00000369636	-0.2061	196	GBM	KICH
ENSG00000259953	ENST00000568421	RHOC	ENSG00000155366	ENST00000369632	-0.8833	1095	GBM	KICH
ENSG00000259953	ENST00000568421	RHOC	ENSG00000155366	ENST00000528831	-0.1208	2111	GBM	KICH
ENSG00000259953	ENST00000568421	VAMP5	ENSG00000168899	ENST00000306384	-0.1213	240	GBM	KICH
ENSG00000259953	ENST00000568421	TRIP6	ENSG00000087077	ENST00000200457	-0.1225	1464	GBM	KICH
ENSG00000259953	ENST00000563249	AKR7A2	ENSG00000053371	ENST00000489286	-0.1349	235	-	KICH
ENSG00000259953	ENST00000563249	RHOC	ENSG00000155366	ENST00000369638	-0.1051	189	GBM	KICH
ENSG00000259953	ENST00000563249	RHOC	ENSG00000155366	ENST00000369637	-0.1202	275	GBM	KICH
ENSG00000259953	ENST00000563249	RHOC	ENSG00000155366	ENST00000369636	-0.1768	287	GBM	KICH
ENSG00000259953	ENST00000563249	RHOC	ENSG00000155366	ENST00000369632	-0.3113	206	GBM	KICH
ENSG00000259953	ENST00000563249	RHOC	ENSG00000155366	ENST00000528831	-0.1185	298	GBM	KICH

Top

lncRNAs regulate mRNA by competing with miRNA

lncRNA regulates mRNA by competing the miRNA binding site with mRNA.

LncRNA Ensembl ID

lncRNA-miRNA-mRNA

Cancer Types

Top

lncRNA coding potential

ORFfinder result for the gencode.v22.lncRNA.transcript.fa.

lncRNA Ensembl ID	lncRNA ENST ID	length(AA)	start at transcript	end at transcript
ENSG00000259953.1	ENST00000563434.1	31	202	107
ENSG00000259953.1	ENST00000568421.1	124	1537	1911
ENSG00000259953.1	ENST00000563249.1	124	805	1179

	lncRNA summary
	lncRNA structure and expression level
	lncRNA-Protein interaction
	lncRNA-DNA interaction
	lncRNA-RNA interaction
	Variants in lncRNA
	lncRNAs regulate the target genes through functioning as enhancers
	lncRNAs regulate the target genes through recruiting transcript factors
	lncRNAs regulate the alternative splicing events through interacting with splicing factor
	lncRNAs regulate mRNA through targeting the 3'-UTR region
	lncRNAs regulate mRNA by competing with miRNA
	lncRNA coding potential